Jonas S. Almeida, Ph.D.     

 Professor, Section of Bioinformatics
M.D. Anderson Hospital, Houston, TX

Ph.D., University of Lisbon, Portugal

jalmeida@mdanderson.org    

Research:

Bioinformatic algorithm development and theory identification for monitoring and modeling of marine ecosystems using molecular biology data.  Particular focus is put on the use of physiological response of target organisms, quantified by its transcriptome (captured by DNA microarrays), as general purpose biosensors.  Neural computing and Chaos Theory play a central role in these endeavors.  

Publications:

Vinga, S and Almeida, JS (2003) Alignment-free sequence comparison-a review. Bioinformatics 2003 19: 513-523.
 

Voit EO, and Almeida JS. (2003) Dynamic Profiling and Canonical Modeling: Powerful Partners in Metabolic Pathway Identification, in: R. Goodacre and G.G. Harrigan (Eds): Metabolite Profiling: Its Role in Biomarker Discovery and Gene Function Analysis. Kluwer Academic Publishing, Dordrecht, The Netherlands.
 

 Almeida JS.  Predictive non-linear modeling of complex data by artificial neural networks.  Curr Op. Biotechnol 13(1): 72-76, 2002.
 

Almeida JS, Vinga S.  Universal sequence map (USM) or arbitrary discrete sequences.  BMC Bioinformatics 3: 6, 2002.
 

 Almeida JS, Carriço JA, Maretzek A, Noble PA, Fletcher M.  Analysis of genomic sequences by chaos game representation.  Bioinformatics 17(5): 429-37, 2001.
 

Wolf G, Almeida JS, Pinheiro C, Correia V, Rodrigues C, Reis MAM, Crespo JG.  Two-dimensional fluorometry coupled with artificial neural networks: A novel method for on-line monitoring of complex biological processes. Biotechnol Bioeng 72(3): 297-306, 2001.
 

Chapman RW, Almeida JS.  Ecogenomics - Response to the Editors.  Comp Biochem Physiol B 130: 133-34, 2001.